Setup

FastQC Summary

Summary statistics for all libraries
Filename Total Flagged As Poor Quality Sequence Length %GC
179_F_CB2YGANXX_ATCACG_L001_R1.fastq.gz 44,234,394 0 50-100 50
187_F_CB2YGANXX_CGATGT_L001_R1.fastq.gz 44,761,237 0 50-100 49
188_F_CB2YGANXX_TTAGGC_L001_R1.fastq.gz 39,450,243 0 50-100 46
190_F_CB2YGANXX_TGACCA_L001_R1.fastq.gz 3.8e+07 0 50-100 47
192_F_CB2YGANXX_ACAGTG_L001_R1.fastq.gz 37,549,038 0 50-100 49
194_F_CB2YGANXX_GCCAAT_L001_R1.fastq.gz 39,374,822 0 50-100 46

Read Totals

Library Sizes ranged between 37,549,038 and 44,761,237 reads.

Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.

FastQC Summary

Summary of FastQC flags for each parameter

Per Base Sequence Quality

Heatmap showing mean base qualities for each library

Per Sequence Quality Scores

Heatmap showing mean sequence qualities for each library

Per Base Sequence Content

Heatmap of summed base distributions along each read

Per Sequence GC Content

GC Content Heatmap normalised to theoretical GC content in the Hsapiens Transcriptome

GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Transcriptome

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented Summary

Total overrepresented sequences for each library

Overrepresented Sequences

Summary of Overrepresented Sequences in all files. A maximum of 30 seqences are shown.
Sequence Total Present In Overall Percentage Max_Percentage Possible_Source
CCCCTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATAT 2,470,257 6 1.015% 1.32% No Hit
CCCTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATT 2,097,210 6 0.862% 1.05% No Hit
ACCAGGTCGATGCGTGGAGTGGACGGAGCAAGCTCCTATTCCAACTCCTA 1,493,122 6 0.614% 1.10% No Hit
GGTCGATGCGTGGAGTGGACGGAGCAAGCTCCTATTCCAACTCCTAGTTC 1,484,980 6 0.610% 1.06% No Hit
CTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGA 1,406,152 6 0.578% 0.71% No Hit
GTCGATGCGTGGAGTGGACGGAGCAAGCTCCTATTCCAACTCCTAGTTCC 1,351,944 6 0.556% 0.93% No Hit
CCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGATG 1,324,620 6 0.544% 0.73% No Hit
CAGGTCGATGCGTGGAGTGGACGGAGCAAGCTCCTATTCCAACTCCTAGT 1,277,741 6 0.525% 0.88% No Hit
GGCAGACGTTCGAATGGGTCGTCGCCGCCACGGAGGGCGTGCGATCGGCC 1,272,490 4 0.523% 1.89% No Hit
CCTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTG 1,238,855 6 0.509% 0.59% No Hit
CTGGAGTCTTGGAAGCTTGACTACCCTACGTTCTCCTACAATGGACCTTG 1,119,146 5 0.460% 1.03% No Hit
CCCCACTACCACAAATTATGCAGTCGAGTTTCCCGCATTTGGGGAAATCG 1,104,636 5 0.454% 1.15% No Hit
CCCACTACCACAAATTATGCAGTCGAGTTTCCCGCATTTGGGGAAATCGC 830,712 5 0.341% 0.87% No Hit
GTCGGCATGTATTAGCTCTAGAATTACCACAGTTATCCAAGTAGGAGAGG 825,035 4 0.339% 0.95% No Hit
CTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTAATT 808,449 4 0.332% 1.00% No Hit
CACCCCTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCAT 782,676 6 0.322% 0.49% No Hit
GTCTGGAGTCTTGGAAGCTTGACTACCCTACGTTCTCCTACAATGGACCT 761,221 5 0.313% 0.72% No Hit
CTCCGTTTCCGACCTGGGCCGGTTCACCCCTCCTTAGGCAACCTGGTGGT 664,017 6 0.273% 0.44% No Hit
GTCCTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTA 579,447 4 0.238% 0.63% No Hit
GCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCG 460,798 3 0.189% 0.58% No Hit
CCAGGTCGATGCGTGGAGTGGACGGAGCAAGCTCCTATTCCAACTCCTAG 460,607 4 0.189% 0.40% No Hit
GTCCCCCACTACCACAAATTATGCAGTCGAGTTTCCCGCATTTGGGGAAA 450,869 4 0.185% 0.44% No Hit
CTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGATGC 413,718 6 0.170% 0.24% No Hit
CTCTTAATCATGGCCTCAGTTCCGAAAACCAACAAAATAGAACCGCGGTC 406,183 3 0.167% 0.52% No Hit
GCTCCGTTTCCGACCTGGGCCGGTTCACCCCTCCTTAGGCAACCTGGTGG 386,278 6 0.159% 0.22% No Hit
CCCGTCGGCATGTATTAGCTCTAGAATTACCACAGTTATCCAAGTAGGAG 324,668 2 0.133% 0.45% No Hit
TCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGAGGTCACCATATTGAT 281,331 5 0.116% 0.17% No Hit
CCCGAGGTTATCTAGAGTCACCAAAGCCGCCGGCGCCCGACCCCCGGCCG 267,579 2 0.110% 0.49% No Hit
CTTCCGTCAATTCCTTTAAGTTTCAGCTTTGCAACCATACTCCCCCCGGA 265,377 2 0.109% 0.40% No Hit
CTCCCATCCAAGTACTAACCAGGCCCGACCCTGCTTAGCTTCCGAGATCA 263,103 4 0.108% 0.21% No Hit

Adapter Content

Universal Adapter Content

Kmer Content

## The Kmer_Content module was missing from 179_F_CB2YGANXX_ATCACG_L001_R1_fastqc.zip
## The Kmer_Content module was missing from 187_F_CB2YGANXX_CGATGT_L001_R1_fastqc.zip
## The Kmer_Content module was missing from 188_F_CB2YGANXX_TTAGGC_L001_R1_fastqc.zip
## The Kmer_Content module was missing from 190_F_CB2YGANXX_TGACCA_L001_R1_fastqc.zip
## The Kmer_Content module was missing from 192_F_CB2YGANXX_ACAGTG_L001_R1_fastqc.zip
## The Kmer_Content module was missing from 194_F_CB2YGANXX_GCCAAT_L001_R1_fastqc.zip
## No Kmers were detected by FastQC